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Originally published as JGV in Press, 10.1099/vir.0.012815-0 on July 22, 2009 J Gen Virol 90 (2009), 2581-2591; DOI 10.1099/vir.0.012815-0

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Microarray-based determination of the lytic cascade of human herpesvirus 6B

Edward H. Tsao1, Paul Kellam1,2, Cheryl S. Y. Sin1, Jane Rasaiyaah1, Paul D. Griffiths1 and Duncan A. Clark1

1 Department of Infection, Division of Infection and Immunity, Royal Free and University College Medical School of UCL, London, UK
2 Virus Genomics Team, Wellcome Trust Sanger Institute, Cambridge, UK

Correspondence
Duncan A. Clark
duncan.clark{at}bartsandthelondon.nhs.uk

The lytic gene expression of several members of the human herpesvirus family has been profiled by using gene-expression microarrays; however, the lytic cascade of roseoloviruses has not been studied in similar depth. Based on the complete DNA genome sequences of human herpesvirus 6 variant A (HHV-6A) and variant B (HHV-6B), we constructed a cDNA microarray containing DNA probes to their predicted open reading frames, plus 914 human genes. Gene-expression profiling of HHV-6B strain Z29 in SupT1 cells over a 60 h time-course post-infection, together with kinetic classification of the HHV-6B genes in the presence of either cycloheximide or phosphonoacetic acid, allowed the placement of HHV-6B genes into defined kinetic classes. Eighty-nine HHV-6B genes were divided into four different expression kinetic classes: eight immediate-early, 44 early, 33 late and four biphasic. Clustering of genes with similar expression profiles implied a shared function, thus revealing possible roles of previously uncharacterized HHV-6B genes.

The ArrayExpress accession numbers for the microarray data generated in this paper are E-MEXP-2129 and E-MEXP-2130.

Supplementary methods, figures, tables and references are available with the online version of this paper.






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